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Table 3 EST-SSRs tested empirically in two Eudicotyledoneae genera, Trifolium and Centaurea

From: Mining microsatellite markers from public expressed sequence tags databases for the study of threatened plants

Locus

GenBank accession No.

Species

Primer sequences

Repeat motif

Expected size (bp)

N A

Size range (bp)

Forward

Reverse

T6-Trifolium

gi86106666

T. pratense

CAACCAGTGGTGTGAGTAGGAG

ACGTTGGTGGAGAGGTTGAG

(AG)11

110–128

2

114–116

gi86105378

T7-Trifolium

gi428283538

T. repens

ATCACGCTTCACTCCTCCAC

CAACTCCAAGCTTAAGATCGTGTA

(AG)13

110–122

 

no PCR product

T1-Trifolium

gi428292074

T. repens

AGATTCCCACCAATCTCCCT

CAATACGCGGGTCTTGATCT

(AG)11

210–228

---

257–261

T2-Trifolium

gi86106666

T. pratense

TTCCGGTTAGGTTAGGGTTT

TTTTCACATCTTCCGAAGCC

(AAT)7

110–113

 

no PCR product

gi86105378

T3-Trifolium

gi428285635

T. repens

CACCACATATGCAACCACAA

GTCGACGACGGTTGTTACCT

(AGT)8

110–126

 

no PCR product

T8-Trifolium

gi428291122

T. repens

GCAAAACTCAAGAGAACGGC

GGATGTCTTCGGAGGTGAGA

(ACC)7

110–122

 

no PCR product

T9-Trifolium

gi428292435

T. repens

ACAACCCATTTGCCTCAAAG

TTTTCACTTCCACCACCTCC

(ACC)7

110–133

2

124–127

T10-Trifolium

gi86119186

T. pratense

TCCACTAGTTCTAGAGCGGC

TCCTGTAAACTGGAGGAGCC

(ACC)9

110–153

 

no PCR product

T11-Trifolium

gi86124411

T. pratense

TGGCGGTGGTGACTTATACA

TGTTTGGCAGTGGTGATGTT

(AGG)8

110–153

 

no PCR product

T4-Trifolium

gi86125686

T. pratense

GCTGCCACAGCACTACCAG

AATATTACCGTGAATGAAGCTCAG

(ACC)8

110–113

1

110

T5-Trifolium

gi86097190

T. pratense

TGAGTTCCGAGTTAAGGCTCA

TTCGGTAACTCCGAGGATTG

(ACCT)5

210–217

2

227–230

T12-Trifolium

gi428282514

T. repens

GATTATTCAACCAAACGCCG

TAGAAAGCCACGCCAAGACT

(AATCC)20

290

 

no PCR product

C6-Centaurea

gi124618051

C. maculosa

TGGGATGCAGTCCAGTCATA

TTGCAACTTGCCTGTACCAC

(AC)11

160–162

1

256

C1-Centaurea

gi148298213

C. maculosa

GGGAACCACACCTTTCATCT

GATCTGGCTTGACCCAAGAA

(AC)10

90–119

2

99–101

C7-Centaurea

gi124669731

gi124688599

C. solstitialis

TCGTTTTCCGATCACAAACTC

CAATTTGGCGACATCTCCTT

(AC)12

110–160

4

114–152

C2-Centaurea

gi124680442

C. solstitialis

CGCATTATGGAATAAACCCG

GCTTTCGACTTCATAAGCGG

(AAG)7

140–152

1

147

C8-Centaurea

gi148296795

C. maculosa

CGATGTATACAGGTGGTGCG

GGAGAAGGGGAGACGTAAGG

(ACC)7

110–150

2

141–144

C9-Centaurea

gi124675484

C. solstitialis

AACGGTAGGAACCAGCATTG

GATCCTCTGGCAGGGTCATA

(ACC)9

260–302

4

290–299

C10-Centaurea

gi124661102

C. solstitialis

AGTTGCCAGAAAGGAGCAAG

TCGAGAACAATGGCCTATCC

(AGC)7

210–229

 

no PCR product

C11-Centaurea

gi148292432

C. maculosa

TCCATGGATACAACCACCAA

GCGATATTCGGATGCAAAGT

(AGG)7

160–175

4

160–172

C3-Centaurea

gi124632630

C. maculosa

GCCATCCCCTTCTCTACTCC

GTTACAGGTGACGATGGGG

(AGT)7

160–181

 

no PCR product

C4-Centaurea

gi124691992

C. solstitialis

CTGCACCTACCCAGAGAAGC

CGGGAGAGGGTAAATTGTGA

(AGGT)5

110–115

3

103–109

C12-Centaurea

gi124632477

C. maculosa

ATGCATTGAGAAGGCCAATC

AACTCGCAAGCCTTTTCAAG

(AATCGG)4

210–223

 

no PCR product

C5-Centaurea

gi124673348

C. solstitialis

TTAAGCATTCTTCGAGGCGT

TCTATGCCTACGCCGATCTC

(AAGCAG)5

110

 

no PCR product

gi124676118

gi124669484

  1. GenBank accession No., identification number of the EST sequences (when more than one ID refers to consensus sequence); species, indicates the species of the EST sequences; primer sequences; type of repeated motif; expected size of the PCR product; N A, number of alleles for the examined individuals and size range of the PCR product (−− indicates stutter peak)
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BMC Genomics

ISSN: 1471-2164

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